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Operating system (if starting from scratch)

You will need

• Windows CD
• License key
• In some cases, drivers for RAID/SATA on a floppy (you will need the "oemsetup.txt" file in the root directory)
• Put CD into computer
• Start - make sure the CD is the first boot device (you may need to go into the boot menu on startup, or change the BIOS settings)
• Click Enter when the message "Press any key to boot from CD" appears
• Shortly after starting to load, you will see a message at the bottom of the screen "Press F6 to load drives" - press F6 if you need to load the drivers on the floppy.
• If you pressed F6, after another few minutes you will need to "Specify" (press "S") the drivers, and enter the floppy.
• Follow the instructions, and you should have Windows installed
• Note: to use upgrade DVD, see this link.

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• Internet Explorer: Change IE search provoder to Google, set homepage to Google
• Install Chrome, or Firefox
  • Turn off Chrome's pdf view: in the address bar, got to chrome://plugins and disable
• Antivirus; Sophos on UCLA network. (2015: Microsoft Security Essentials is no longer very good)
• I like to change the CD-ROM drive letter to Z:\; start Computer Management (right-click over Computer to get Properties, or Control panel, Administrative Tools), and go to disk management. Do this before installing any software from CD, as it remembers the drive location.
• Create a temporary (temp) drive to use for temporary items that you can regularly clean out (for example: C:\temp or D:\temp)
• Control panel - set to "small icons" view
• Date settings - I like "7-Aug-12" as the short date format - set in Control Panel -> Region and Language
• Get updates: Control panel, Windows update
  • Win7: Get magiciso - but search for magicdisk, as a search for magic iso returns the wrong program As of 2012, the correct link is [link]. This will install a tray icon - change settings (little up-arrow, "Customize") to "always show icon and notifications."
• Install Office; After a restart, you can mount the ISO as a virtual drive using magic ISO (on share drive). Get the updates.
  
  • Set field shading to always
  • Add Save As, etc. to quick access toolbar
  • For Outlook, turn off AutoArchive: File, Options, Advanced, AutoArchive button on right
  • In Outlook, turn off junk filtering; this is in the "Delete" group. If it is grayed out, change the registry HKEY_CURRENT_USER\Software\Policies\Microsoft\office\14.0\outlook DisableAntiSpam to 0 ([link])
  • Google Calendar Sync should run on one always-one computer, if you want to sync em (Outlook) calendar with Google calendar
  • "XL Toolbox" allows you to export publication-ready figures from Excel.(http://sourceforge.net/projects/xltoolbox)
• Screen - Adjust the screen resolution, multiple monitors, refresh rate (for CRT monitors)
• Power options - under Control Panel/Power Options, make sure it does not put the computer to sleep (especially Windows 7; choose performance plan and adjust settings if need be
• Explorer (file browser) - Setup explorer to menu and paths and folders by default: Tools (Alt^t), Folder Options, Advanced
  • In Win 10, set to go to MyPC, not Quick Access
• (pre 2015) If you are using the vmware Linux virtual machine, change the registry: fix
• Window maximizing when move outside screen - DISABLE this irritating "feature" Control Panel/Ease of Access Center/Make the mouse easier to use/check Prevent Windows from rearranging ... [link]

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• Adobe Acrobat
• Backup - my latest favorite is SyncBackPro.
• Browsers
  • Chrome setup: set downloads location to "C:\temp", install adblock and facebook blocked add-ons. If you have an account, everything is carried over (add-ons, bookmarks)
  • Chrome: turn off browser pdf viewer by going to address about:plugins and disable "Chrome PDF Viewer"
• Camtasia and Snagit
• Cloning: 2016-06, Macrium Reflect seems to doa good job. "although Samsung SSD's come with a great clone tool ("Data Migration"), this did not work to overwrite an existing clone.
• Desktop
  • organization: use Fences
  • VirtuaWin for multiple desktops
• Google drive for PC (this will install a link on your desktop)
  • If you don't have a lot of space on system folder:
    • Create a Google Drive folder on a second hard drive
    • Before signing in starting, Go to Advanced
    • Select the new folder you created
• Folder Size - great software to scan folder trees for size: http://www.mindgems.com/products/Folder-Size/Folder-Size.html
• Java - get 32-bit version using any browser, then open a 64-bit browser to get the 64-bit version (needed for some LONI tools); Programs => IE (64-bit)
• Zip/compression software - Install 7-zip; you can right-click over zip/tar/gz files in Explore
• MATLAB - install the latest files
  • copy matlab and startup folders from Share drive; "matlab" folder should go to c:\matlab
  • change the permissions on the matlabroot\toolbox\local folder so that all users can write.
  • Set up the Database
  • Add the "dbstop if error" shortcut
  • set editor preferences for 100 columns and indenting (Editor/Debugger => Display AND Language settings)
  • under language, "Indent all functions"
  • under Tab, "Emacs-style Tab key smart indenting"
  • If using parallel, go to "Parallel" menu, manage profile, and test; Windows will give firewall warnings and let you allow the profile to run
• (pre 2015 - no longer needed as have java connection) Install the database connection; get the MyODBC connector (from [link] target="_blank">http://dev.mysql.com""> target="_blank">target="_blank">http://dev.mysql.com">> target="_blank">target="_blank">http://dev.mysql.com> target="_blank">target="_blank">http://dev.mysql.com>>> website), and set up the sidata64 and hfdata64 connections.
• [link]MRI Convert - this successfully converts some DICOM files that SPM cannot (e.g., 2007 Philips); CSPM will try to use this when SPM fails
• MRIcron
• MRIcroGL - note that this does not "install," so you need to save the files into your "Program Files" folder ("C:\Program Files (x86)" on 64-bit systems)and make a link to the mricrogl application.
• CorelDraw
  • Import saved workspace (Options -> Workspaces), usually saved on the share drive
• Email: Thunderbird (if you use IMAP, install IMAPsize, otherwise use MozBackup;
  • Accounts: add them in the order you want them listed
  • Account settings: change name, reply-to email, set to put replies in same folder, BCC to gmail, reply start above quote
  • Add-ons: install adblock, quicktext, quickfolders, folder pane view switcher ([link])
  • Attachment - expand pane to see all files: Right-click on the attachment pane, and click "Initially Show Attachment Pane" (replaces Attachment Options" add-on)
  • Filters: us "*.dat" file, copy to folder (Account settings, Location)
  • For UCLA EM accounts, visit: http://help.em.ucla.edu/app/answers/detail/a_id/1240
  • To keep the size down, see these options: http://kb.mozillazine.org/Minimize_the_size_of_a_profile. For gmail accounts unselecting the "All mail" helps a lot.
• Endnote;
  • check for updates
  • set up a dummy library for searches
  • set to open the main and dummy libraries (Edit, Preferences)
  • In word, disable Instant formatting
  • load grant and other custom styles; may need to specify the Styles folder location (2012: under Documents\Publications).
  • change fields display - Author only (checkbox), no URL
• Ghostscript
  • To work with IrfanView, use 32-bit version
  • Easy download from http://www.ghostscript.com/download/gsdnld.html (2015-09). The www.ghsotscript.com site is a little confusing.
• GPower
• IrfanView for simple pasting/editing screen shots, other simple images; install the plugins to allow DICOM viewing
• LightScribe system software and labeling application (if have compatible DVD writer); this allows LightScribe DVD's to be labelled.
• Linux Virtual Machine
  • install VMWare workstation (or VM player for standard workstations)
  • copy the "LinuxVM" (Virtual machine created by Paul with FSL, FreeSurfer, etc)
  • setup the VM - see Linux in Windows (Virtual Machine)
  • PuTTy use the installer, and connect once to the LinuxVM, and accept the certificate.
• Notepad2 - use the "setup" version to replace the Windows notepad [link]
• Paint.NET
• Printer(s)
• R
• SAS
• Search - As of 2013, Windows search effectively does not work. Try an alternative (e.g., Agent Ransack).
• Sniptool to taskbar
• SyncBackPro
  • VirtualDub - for converting trickier video file formats to something usable (suggested by Adobe).
• VirtuaWin - for having multiple desktops.
• WinSCP for secure file transfer

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